Panel Matplotlib pane fails when interactive=True

Question

Panel Matplotlib pane fails when interactive=True

ncvangilse opened this issue 3 years ago · comments

I was directed to file an issue here from https://discourse.holoviz.org/t/matplotlib-pane-throwing-attributeerror-when-interactive-true/2911

The minimal app:

import panel as pn
from matplotlib import pyplot as plt

fig, ax = plt.subplots()
ax.plot([0,1,2], [2,2,4])
pn.pane.plot.Matplotlib(fig, interactive=True).show()

works when

    - ipykernel<6  
    - ipympl==0.7.0  
    - panel<=0.12.1

But I have discovered that even with these versions, the app crashes when the page is reloaded.
If I run it via docker, the panes displays correctly the first time the app spins up, but subsequent sessions will display horizontally squished panes:

where the first session dies with trace:

HTTPServerRequest(protocol='http', host='localhost:58471', method='GET', uri='/', version='HTTP/1.1', remote_ip='::1')
Traceback (most recent call last):
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\traitlets\traitlets.py", line 537, in get
    value = obj._trait_values[self.name]
KeyError: 'layout'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\tornado\web.py", line 1704, in _execute
    result = await result
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\io\server.py", line 206, in get
    session = await self.get_session()
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\bokeh\server\views\session_handler.py", line 120, in get_session
    session = await self.application_context.create_session_if_needed(session_id, self.request, token)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\bokeh\server\contexts.py", line 218, in create_session_if_needed
    self._application.initialize_document(doc)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\io\server.py", line 172, in initialize_document
    super().initialize_document(doc)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\bokeh\application\application.py", line 171, in initialize_document
    h.modify_document(doc)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\bokeh\application\handlers\function.py", line 132, in modify_document
    self._func(doc)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\io\server.py", line 81, in _eval_panel
    doc = as_panel(panel)._modify_doc(server_id, title, doc, location)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\viewable.py", line 244, in _modify_doc
    return self.server_doc(doc, title, location)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\viewable.py", line 794, in server_doc
    model = self.get_root(doc)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\pane\base.py", line 265, in get_root
    root = self._get_model(doc, comm=comm)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\pane\plot.py", line 192, in _get_model
    manager = self._get_widget(self.object)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\panel\pane\plot.py", line 178, in _get_widget
    canvas = Canvas(fig)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipympl\backend_nbagg.py", line 163, in __init__
    DOMWidget.__init__(self, *args, **kwargs)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\widget.py", line 415, in __init__
    self.open()
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\widget.py", line 428, in open
    state, buffer_paths, buffers = _remove_buffers(self.get_state())
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\widget.py", line 518, in get_state
    value = to_json(getattr(self, k), self)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\traitlets\traitlets.py", line 577, in __get__
    return self.get(obj, cls)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\traitlets\traitlets.py", line 540, in get
    default = obj.trait_defaults(self.name)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\traitlets\traitlets.py", line 1580, in trait_defaults
    return self._get_trait_default_generator(names[0])(self)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\traitlets\traitlets.py", line 513, in default
    return self.make_dynamic_default()
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\trait_types.py", line 168, in make_dynamic_default
    return self.klass(*(self.default_args or ()),
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\widget.py", line 415, in __init__
    self.open()
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets\widgets\widget.py", line 438, in open
    self.comm = Comm(**args)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipykernel\comm\comm.py", line 57, in __init__
    self.open(data=data, metadata=metadata, buffers=buffers)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipykernel\comm\comm.py", line 91, in open
    self._publish_msg('comm_open',
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipykernel\comm\comm.py", line 66, in _publish_msg
    self.kernel.session.send(self.kernel.iopub_socket, msg_type,
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets_bokeh\kernel.py", line 80, in send
    self._trigger_change(event)
  File "C:\Users\nchvg\Miniconda3\envs\optisoil-engineering-tools\lib\site-packages\ipywidgets_bokeh\kernel.py", line 103, in _trigger_change
    self.document.callbacks.trigger_on_change(event)
AttributeError: 'Document' object has no attribute 'callbacks'

Philipp Rudiger · Answer 1 · Fri Nov 12 2021 23:59:57 GMT+0800 (China Standard Time)

Should have updated the pins but latest ipywidgets_bokeh requires bokeh>2.4.

Marc Skov Madsen · Answer 2 · Sat Nov 13 2021 15:36:21 GMT+0800 (China Standard Time)

I tried the example with the latest version

bokeh 2.4.1
ipykernel 6.5.0
ipympl 0.8.2
ipywidgets-bokeh 1.2.1
matplotlib 3.4.3
panel 0.12.4

It now throws another error

import panel as pn
from matplotlib import pyplot as plt

FONTAWESOME_LINK = "https://cdnjs.cloudflare.com/ajax/libs/font-awesome/4.5.0/css/font-awesome.css"
pn.config.css_files.append(FONTAWESOME_LINK)

fig, ax = plt.subplots()
ax.plot([0,1,2], [2,2,4])
pn.pane.plot.Matplotlib(fig, interactive=True).show()

$ python 'snippets\script.py'
Launching server at http://localhost:51985
WARNING:tornado.access:404 GET /favicon.ico (::1) 1.00ms
ERROR:fake:Invalid Message
Traceback (most recent call last):
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\ipykernel\kernelbase.py", line 312, in dispatch_shell
    msg = self.session.deserialize(msg, content=True, copy=False)
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\jupyter_client\session.py", line 1048, in deserialize
    raise ValueError("Duplicate Signature: %r" % signature)
ValueError: Duplicate Signature: b'ddb25f037b3c018553a6441f9fd711c54e4c159ba478de1f5ac630117f72a267'      
ERROR:fake:Invalid Message
....
Traceback (most recent call last):
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\ipykernel\kernelbase.py", line 312, in dispatch_shell
    msg = self.session.deserialize(msg, content=True, copy=False)
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\jupyter_client\session.py", line 1048, in deserialize
    raise ValueError("Duplicate Signature: %r" % signature)
ValueError: Duplicate Signature: b'400aa479fa9ab6a81aa652cb81b59f1b3e8870a9a863d78014879dd57855b86c'      
ERROR:fake:Invalid Message
Traceback (most recent call last):
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\ipykernel\kernelbase.py", line 312, in dispatch_shell
    msg = self.session.deserialize(msg, content=True, copy=False)
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\jupyter_client\session.py", line 1048, in deserialize
    raise ValueError("Duplicate Signature: %r" % signature)
ValueError: Duplicate Signature: b'400aa479fa9ab6a81aa652cb81b59f1b3e8870a9a863d78014879dd57855b86c'      
ERROR:fake:Invalid Message
Traceback (most recent call last):
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\ipykernel\kernelbase.py", line 312, in dispatch_shell
    msg = self.session.deserialize(msg, content=True, copy=False)
  File "C:\repos\private\panel-visuals\.venv\lib\site-packages\jupyter_client\session.py", line 1048, in deserialize
    raise ValueError("Duplicate Signature: %r" % signature)
ValueError: Duplicate Signature: b'400aa479fa9ab6a81aa652cb81b59f1b3e8870a9a863d78014879dd57855b86c'      
WARNING:tornado.access:404 GET /static/extensions/ipywidgets_bokeh/06c52960c6d2c0312a3e.woff?v=4.7.0 (::1) 1.00ms
WARNING:tornado.access:404 GET /static/extensions/ipywidgets_bokeh/4c6f1cd9993ba8a53b8e.ttf?v=4.7.0 (::1) 
1.00ms

The problem is also there if I downgrade ipykernel to 5.5.6.

Jonas Klasen · Answer 3 · Tue Apr 26 2022 04:46:09 GMT+0800 (China Standard Time)

Hi, I was wondering if there is any update on this issue?

Philipp Rudiger · Answer 4 · Tue Apr 26 2022 04:55:36 GMT+0800 (China Standard Time)

This should be resolved with latest Panel (0.13.0) and bokeh (2.4.2).

Jonas Klasen · Answer 5 · Tue Apr 26 2022 18:06:22 GMT+0800 (China Standard Time)

I run this with the latest versions of the tools and got inconsistent results. It was not producing reliable results on Mac and Linux, Chrome and Firefox, classic notebook and lab. What seems to work reliably is downgrading ipympl to 0.7.0 and using a classic notebook.

Jonas Klasen · Answer 6 · Tue Apr 26 2022 19:04:20 GMT+0800 (China Standard Time)

sometimes it even altered jupyterlab in weird ways. But this might be related to the "render with panel" button

Philipp Rudiger · Answer 7 · Tue Apr 26 2022 19:48:33 GMT+0800 (China Standard Time)

That should have been resolved by panel 0.13. can you confirm what panel.__version__ reports?

Jonas Klasen · Answer 8 · Tue Apr 26 2022 22:44:13 GMT+0800 (China Standard Time)

yes, I can confirm my panel version is '0.13.0'